EP1987166A4 - Binary deoxyribozyme probes for nucleic acid analysis - Google Patents

Binary deoxyribozyme probes for nucleic acid analysis

Info

Publication number
EP1987166A4
EP1987166A4 EP07868171A EP07868171A EP1987166A4 EP 1987166 A4 EP1987166 A4 EP 1987166A4 EP 07868171 A EP07868171 A EP 07868171A EP 07868171 A EP07868171 A EP 07868171A EP 1987166 A4 EP1987166 A4 EP 1987166A4
Authority
EP
European Patent Office
Prior art keywords
probes
nucleic acid
acid analysis
binary deoxyribozyme
deoxyribozyme
Prior art date
Legal status (The legal status is an assumption and is not a legal conclusion. Google has not performed a legal analysis and makes no representation as to the accuracy of the status listed.)
Withdrawn
Application number
EP07868171A
Other languages
German (de)
French (fr)
Other versions
EP1987166A2 (en
Inventor
Dmitry Kolpashcikov
Current Assignee (The listed assignees may be inaccurate. Google has not performed a legal analysis and makes no representation or warranty as to the accuracy of the list.)
Columbia University in the City of New York
Original Assignee
Columbia University in the City of New York
Priority date (The priority date is an assumption and is not a legal conclusion. Google has not performed a legal analysis and makes no representation as to the accuracy of the date listed.)
Filing date
Publication date
Application filed by Columbia University in the City of New York filed Critical Columbia University in the City of New York
Publication of EP1987166A2 publication Critical patent/EP1987166A2/en
Publication of EP1987166A4 publication Critical patent/EP1987166A4/en
Withdrawn legal-status Critical Current

Links

Classifications

    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
    • C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/68—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
    • C12Q1/6813—Hybridisation assays
    • C12Q1/6816—Hybridisation assays characterised by the detection means
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
    • C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/68—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
    • C12Q1/6813—Hybridisation assays
    • C12Q1/6827—Hybridisation assays for detection of mutation or polymorphism

Landscapes

  • Chemical & Material Sciences (AREA)
  • Organic Chemistry (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Zoology (AREA)
  • Wood Science & Technology (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Health & Medical Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Microbiology (AREA)
  • Immunology (AREA)
  • Physics & Mathematics (AREA)
  • Molecular Biology (AREA)
  • Biotechnology (AREA)
  • Biophysics (AREA)
  • Analytical Chemistry (AREA)
  • Biochemistry (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • General Engineering & Computer Science (AREA)
  • General Health & Medical Sciences (AREA)
  • Genetics & Genomics (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
EP07868171A 2006-02-03 2007-02-04 Binary deoxyribozyme probes for nucleic acid analysis Withdrawn EP1987166A4 (en)

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
US76492406P 2006-02-03 2006-02-03
PCT/US2007/061583 WO2008054834A2 (en) 2006-02-03 2007-02-04 Binary deoxyribozyme probes for nucleic acid analysis

Publications (2)

Publication Number Publication Date
EP1987166A2 EP1987166A2 (en) 2008-11-05
EP1987166A4 true EP1987166A4 (en) 2010-06-02

Family

ID=39344937

Family Applications (1)

Application Number Title Priority Date Filing Date
EP07868171A Withdrawn EP1987166A4 (en) 2006-02-03 2007-02-04 Binary deoxyribozyme probes for nucleic acid analysis

Country Status (3)

Country Link
US (1) US8354227B2 (en)
EP (1) EP1987166A4 (en)
WO (1) WO2008054834A2 (en)

Families Citing this family (24)

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Publication number Priority date Publication date Assignee Title
DK1948822T3 (en) 2005-10-07 2011-10-17 Johnson & Johnson Res Pty Ltd Multicomponent nucleic acid enzymes and methods for their use
WO2008054834A2 (en) 2006-02-03 2008-05-08 Columbia University Binary deoxyribozyme probes for nucleic acid analysis
JP5688507B2 (en) * 2006-10-06 2015-03-25 スピーデクス ピーティーワイ リミテッド Molecular switches and methods for their use
ES2425066T3 (en) 2007-04-05 2013-10-11 Speedx Pty Ltd Enzymes and nucleic acid complexes and methods for use
EP2367838A4 (en) 2008-11-21 2012-10-03 Univ Columbia A split dna enzyme for visual single nucleotide polymorphism typing
WO2010088404A1 (en) * 2009-01-28 2010-08-05 Columbia University Microarrays of binary nucleic acid probes for detecting nucleic acid analytes
US8859266B2 (en) * 2010-04-28 2014-10-14 University Of Central Florida Research Foundation, Inc. Binary probe system for sensitive detection of target analytes
WO2012119231A1 (en) * 2011-03-08 2012-09-13 Mcmaster University Catalytic nucleic acid probes as microbial indicators
US9914958B2 (en) * 2011-11-05 2018-03-13 President And Fellows Of Harvard College Nucleic acid-based linkers for detecting and measuring interactions
WO2015094958A1 (en) * 2013-12-18 2015-06-25 Albert Einstein College Of Medicine Of Yeshiva University Method of rapid isolation of aptamer beacons
WO2016089588A1 (en) 2014-12-06 2016-06-09 Children's Medical Center Corporation Nucleic acid-based linkers for detecting and measuring interactions
US11396650B2 (en) 2015-06-02 2022-07-26 Children's Medical Center Corporation Nucleic acid complexes for screening barcoded compounds
US12077807B2 (en) 2015-06-27 2024-09-03 The Research Foundation For The State University Of New York Compositions and methods for analyte detection using nanoswitches
US11713483B2 (en) 2016-02-09 2023-08-01 Children's Medical Center Corporation Method for detection of analytes via polymer complexes
US10919037B2 (en) 2016-03-23 2021-02-16 Children's Medical Center Corporation Systems and apparatus for detecting compounds in human biological samples
CN106872460B (en) * 2017-03-08 2019-10-18 广东省生态环境技术研究所 A kind of detection method and detection kit of Ochratoxin A
CN106868157B (en) * 2017-03-17 2019-08-27 广东省生态环境技术研究所 A kind of detection method and detection kit of staphylococcus aureus
CN106868158B (en) * 2017-03-17 2019-08-27 广东省生态环境技术研究所 A kind of detection method and detection kit of salmonella
CN107643401B (en) * 2017-10-13 2019-08-27 广东省生态环境技术研究所 A kind of detection method and detection kit of bisphenol-A
WO2019100080A1 (en) 2017-11-20 2019-05-23 Children's Medical Center Corporation Force-controlled nanoswitch assays for single-molecule detection in complex biological fluids
CN111778315B (en) * 2020-06-10 2023-03-14 山东师范大学 Gold nanoparticle sensor based on hairpin locking deoxyribozyme probe and application of gold nanoparticle sensor in MUC1 detection
CN112831499B (en) * 2021-02-20 2022-12-02 上海交通大学 DNA origami-based bipartite deoxyribozyme structure and preparation method and application thereof
CN114058678B (en) * 2021-11-01 2024-07-30 大连理工大学 Application of deoxyribozyme probe in escherichia coli drug-resistant phenotype high-flux sensing
CN114107295B (en) * 2021-11-17 2023-07-21 大连理工大学 Metal ion response type annular deoxyribozyme probe

Citations (1)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2005073405A2 (en) * 2004-01-29 2005-08-11 Yissum Research Development Company Of The Hebrew University Of Jerusalem Catalytic polynucleotide and its use for determination of analytes

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US5378825A (en) 1990-07-27 1995-01-03 Isis Pharmaceuticals, Inc. Backbone modified oligonucleotide analogs
US6582921B2 (en) * 1996-07-29 2003-06-24 Nanosphere, Inc. Nanoparticles having oligonucleotides attached thereto and uses thereof
WO1999046388A1 (en) * 1998-03-12 1999-09-16 Taisho Pharmaceutical Co., Ltd. Nucleic acid enzyme showing allosteric rna-cleaving activity on target rna
GB9827912D0 (en) 1998-12-19 1999-02-10 Univ Manchester Detecting nucleic acids
US6413722B1 (en) 2000-03-22 2002-07-02 Incyte Genomics, Inc. Polymer coated surfaces for microarray applications
US20020102694A1 (en) * 2000-03-31 2002-08-01 Ronald Breaker Nucleozymes with endonuclease activity
US6706474B1 (en) * 2000-06-27 2004-03-16 Board Of Trustees Of The University Of Illinois Nucleic acid enzyme biosensors for ions
US20020172960A1 (en) 2001-05-17 2002-11-21 Yijia Bao DNA microarrays of networked oligonucleotides
WO2003037909A1 (en) * 2001-10-29 2003-05-08 Mcgill University Acyclic linker-containing oligonucleotides and uses thereof
US20040070426A1 (en) * 2002-02-21 2004-04-15 Stojanovic Milan N. Oligonucleotide - based logic gates and molecular networks
DK1948822T3 (en) * 2005-10-07 2011-10-17 Johnson & Johnson Res Pty Ltd Multicomponent nucleic acid enzymes and methods for their use
CN101365808B (en) 2005-12-07 2012-04-25 泰博特克药品有限公司 Methods, plasmid vectors and primers for assessing HIV viralfitness
WO2008054834A2 (en) 2006-02-03 2008-05-08 Columbia University Binary deoxyribozyme probes for nucleic acid analysis
EP2511383B1 (en) 2006-03-31 2013-12-25 Columbia University Binary probes for fluorescent analysis of nucleic acids
JP5688507B2 (en) 2006-10-06 2015-03-25 スピーデクス ピーティーワイ リミテッド Molecular switches and methods for their use
EP2367838A4 (en) 2008-11-21 2012-10-03 Univ Columbia A split dna enzyme for visual single nucleotide polymorphism typing

Patent Citations (1)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2005073405A2 (en) * 2004-01-29 2005-08-11 Yissum Research Development Company Of The Hebrew University Of Jerusalem Catalytic polynucleotide and its use for determination of analytes

Non-Patent Citations (6)

* Cited by examiner, † Cited by third party
Title
AMONTOV S V ET AL: "HAMMERHEAD MINIZYMES WITH HIGH CLEAVAGE ACTIVITY: A DIMERIC STRUCTURE AS THE ACTIVE CONFORMATION OF MINIZYMES", JOURNAL OF THE AMERICAN CHEMICAL SOCIETY, AMERICAN CHEMICAL SOCIETY, NEW YORK, USA LNKD- DOI:10.1021/JA9517734, vol. 118, no. 7, 21 February 1996 (1996-02-21), pages 1624 - 1628, XP002045193, ISSN: 0002-7863 *
BREAKER R R ET AL: "A DNA ENZYME WITH MG2+-DEPENDENT RNA PHOSPHOESTERASE ACTIVITY", CHEMISTRY AND BIOLOGY, CURRENT BIOLOGY, LONDON, GB LNKD- DOI:10.1016/1074-5521(95)90028-4, vol. 2, 1 January 1995 (1995-01-01), pages 655 - 660, XP009009111, ISSN: 1074-5521 *
LEVY MATTHEW ET AL: "Exponential growth by cross-catalytic cleavage of deoxyribozymogens.", PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA 27 MAY 2003 LNKD- PUBMED:12743371, vol. 100, no. 11, 27 May 2003 (2003-05-27), pages 6416 - 6421, XP002577985, ISSN: 0027-8424 *
STOJANOVIC M N ET AL: "Catalytic molecular beacons", CHEMBIOCHEM - A EUROPEAN JOURNAL OF CHEMICAL BIOLOGY, WILEY VCH, WEINHEIM, DE LNKD- DOI:10.1002/1439-7633(20010601)2:6<411::AID-CBIC411>3.3.CO;2-9, vol. 2, no. 6, 1 June 2001 (2001-06-01), pages 411 - 415, XP002260903, ISSN: 1439-4227 *
VAISH NARENDRA K ET AL: "Zeptomole detection of a viral nucleic acid using a target-activated ribozyme", RNA, COLD SPRING HARBOR LABORATORY PRESS, US LNKD- DOI:10.1261/RNA.5760703, vol. 9, no. 9, 1 September 2003 (2003-09-01), pages 1058 - 1072, XP009114599, ISSN: 1355-8382 *
VOROBJEVA M ET AL: "Modified binary hammerhead ribozymes with high catalytic activity.", NUCLEOSIDES, NUCLEOTIDES & NUCLEIC ACIDS 2005 LNKD- PUBMED:16248101, vol. 24, no. 5-7, 2005, pages 1105 - 1109, XP009132083, ISSN: 1525-7770 *

Also Published As

Publication number Publication date
EP1987166A2 (en) 2008-11-05
WO2008054834A3 (en) 2009-04-09
US8354227B2 (en) 2013-01-15
WO2008054834A9 (en) 2009-07-09
US20100015608A1 (en) 2010-01-21
WO2008054834A2 (en) 2008-05-08

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